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ChIP-seq analysis of Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3 or sGCβ1) binding to chromatin DNA

ABSTRACT: To identify sGCβ1 binding sites to chromatin DNA, we performed ChIP analysis by using anti-sGCβ1 antibody (Sigma G4405). We have successfully identified 4169 intervals. In this study, sGCβ1 was found to bind to many genes' promoter region.

ORGANISM(S): Homo sapiens

PROVIDER: GSE83419 | GEO | 2016/06/16

SECONDARY ACCESSION(S): PRJNA325837

REPOSITORIES: GEO

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ChIP-seq analysis of Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3 or sGCÎ²1) binding to chromatin DNA

Project description:To identify sGCÎ²1 binding sites to chromatin DNA, we performed ChIP analysis by using anti-sGCÎ²1 antibody (Sigma G4405). We have successfully identified 4169 intervals. In this study, sGCÎ²1 was found to bind to many genes' promoter region. We used U-87 MG (ATCCÂ® HTB-14) glioma cells which overexpress sGCÎ²1 (generated by us) to perform ChIP assay by using anti-sGCÎ²1 antibody (Sigma G4405) and genome-wide sGCÎ²1 binding was determined with sequencing. The ChIP DNA was processed into a standard Illumina ChIP-Seq library and sequence. The 75-nt sequence reads generated by Illumina sequencing (using NextSeq 500) are mapped to the hg19 genome using the BWA algorithm with default settings. Only reads that pass Illuminaâs purity filter, align with no more than 2 mismatches, and map uniquely to the genome are used in the subsequent analysis. Intervals (= Peaks) were determined using the MACS peak finding algorithm.

2016-06-16 | E-GEOD-83419 | biostudies-arrayexpress

Expression Profiling: Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3) overexpression U87 MG cells

2016-06-15 | GSE83344 | GEO

Expression Profiling: Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3) overexpression U87 MG cells

Project description:Total RNA were extracted from Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3) overexpression U87 MG stable cell lines and U87 MG cells. Three RNA samples of each of the two cell lines were used for microarray analysis to compare gene expression profile Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3) was cloned into pCDNA3.1D/V5-His-TOPO plasmid (Invitrgen) and then transfected into U87 MG (ATCC HTB-1) cells to generate stable overexpression cells. RNA from the stable cell lines and U87 MG were used for microarray

2016-06-15 | E-GEOD-83344 | biostudies-arrayexpress